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Growth Behavior and Transcriptome Profile Analysis of Proteus mirabilis Strain Under Long- versus Short-Term Simulated Microgravity Environment

Bin Zhang

Bin Zhang

Department of Respiratory and Critical Care Medicine, Binzhou Medical University HospitalBinzhou, China
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Zhang, Bin
, 
Po Bai

Po Bai

Respiratory Diseases Department, PLA Rocket Force Characteristic Medical CenterBeijing, China
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Bai, Po
 y 
Dapeng Wang

Dapeng Wang

Respiratory Diseases Department, The Second Medical Center of PLA General HospitalBeijing, China
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Wang, Dapeng
  
23 may 2022
Growth Behavior and Transcriptome Profile Analysis of Proteus mirabilis Strain Under Long- versus Short-Term Simulated Microgravity Environment's Cover Image
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Categoría del artículo: Original paper
Publicado en línea: 23 may 2022
Páginas: 161 - 171
Recibido: 31 dic 2021
Aceptado: 07 mar 2022
DOI: https://doi.org/10.33073/pjm-2022-015
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© 2022 Bin Zhang et al., published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Fig. 1

Schematic diagram of mechanical principle of HARV. MG is simulated by rotating the samples around a plane perpendicular to the gravity vector.
Schematic diagram of mechanical principle of HARV. MG is simulated by rotating the samples around a plane perpendicular to the gravity vector.

Fig. 2

Growth curve of PML (red) and PMS (blue). The growth curves of PML and PMS were quantified by measuring the OD600 values every 2 h for 24 h.
Growth curve of PML (red) and PMS (blue). The growth curves of PML and PMS were quantified by measuring the OD600 values every 2 h for 24 h.

Fig. 3

Biofilm formation ability of PML (red) and PMS (blue). Biofilm formation ability of PML and PMS was examined by measuring the OD570 values in microtiter plates.
Biofilm formation ability of PML (red) and PMS (blue). Biofilm formation ability of PML and PMS was examined by measuring the OD570 values in microtiter plates.

Fig. 4

Swarming motility of PML (red) and PMS (blue). Swarming motility of PML and PMS was determined by measuring the translucent zone diameters in swarming agar.
Swarming motility of PML (red) and PMS (blue). Swarming motility of PML and PMS was determined by measuring the translucent zone diameters in swarming agar.

Fig. 5

The Venn diagram of common and specific genes in PML and PMS.
The Venn diagram of common and specific genes in PML and PMS.

Fig. 6

Scatter plot of DEGs. The x-axis and y-axis represent the logarithm of the gene expression for PML and PMS, respectively. Red spots and blue spots represent upregulated and downregulated genes, respectively.
Scatter plot of DEGs. The x-axis and y-axis represent the logarithm of the gene expression for PML and PMS, respectively. Red spots and blue spots represent upregulated and downregulated genes, respectively.

Fig. 7

KEGG pathway analysis of DEGs. The x-axis and y-axis represent the numbers of DEGs and KEGG pathway category, respectively.
KEGG pathway analysis of DEGs. The x-axis and y-axis represent the numbers of DEGs and KEGG pathway category, respectively.

Statistics of differentially expressed genes (DEGs)_

Gene ID Expression (up/down) Log2 FoldChang (PML/PMS) Adjusted p-value Gene products
csdA up 1.308 < 0.001 cysteine sulfinate desulfinase
csdE up 1.156 < 0.001 cysteine desulfuration protein
cutC up 1.323 0.004 choline trimethylamine-lyase
phoA up 1.686 0.002 alkaline phosphatase
pspA up 1.077 0.003 phage shock protein A
pspB up 1.107 0.002 phage shock protein B
pstB up 1.423 0.049 phosphate transport system ATP-binding protein
rplT up 1.060 0.023 large subunit ribosomal protein
ugpA up 1.439 0.002 phosphate transport system ATP-binding protein
ugpB up 1.377 < 0.001 phosphate transport system ATP-binding protein
ugpC up 1.228 0.010 phosphate transport system ATP-binding protein
ugpE up 1.575 0.002 phosphate transport system ATP-binding protein
PMI_RS02645 up 1.148 < 0.001 fimbria/pilus periplasmic chaperon
PMI_RS09180 up 1.031 0.022 cysteine desulfurase
PMI_RS09250 up 1.064 0.009 sensor histidine kinase
PMI_RS13360 up 2.720 < 0.001 small multidrug resistance pump
PMI_RS13370 up 1.424 0.017 putative phosphotransacetylase
PMI_RS14325 up 1.473 0.023 amino acid transport system substrate-binding protein
PMI_RS17915 up 1.520 < 0.001 Cd2+/Zn2+-exporting ATPase
artP down –1.009 < 0.001 arginine transport system ATP-binding protein
cyoB down –1.290 0.022 cytochrome o ubiquinol oxidase subunit I
epd down –1.011 0.007 D-erythrose 4-phosphate dehydrogenase
fadB down –1.330 0.016 3-hydroxyacyl-CoA dehydrogenase
fadE down –1.045 0.047 acyl-CoA dehydrogenase
feoA down –1.277 < 0.001 ferrous iron transport protein A
glpA down –1.465 0.005 glycerol-3-phosphate dehydrogenase
glpB down –1.348 0.023 glycerol-3-phosphate dehydrogenase
glpT down –1.221 0.003 glycerol-3-phosphate transporter
ilvN down –1.080 0.018 acetolactate synthase I/III small subunit
metI down –1.178 0.003 D-methionine transport system permease protein
msrB down –1.021 < 0.001 peptide-methionine oxide reductase
phsA down –1.181 0.046 thiosulfate reductase
ptsG down –1.099 < 0.001 PTS system, glucose-specific IIB component
PMI_RS00340 down –1.105 < 0.001 protein NrfC
PMI_RS00505 down –1.210 0.048 cytochrome ubiquinol oxidase subunit III
PMI_RS00510 down –1.283 0.036 cytochrome ubiquinol oxidase subunit IV
PMI_RS07940 down –1.255 0.028 –
PMI_RS09930 down –1.008 0.048 toxin CptA
PMI_RS10955 down –2.137 < 0.001 major pilin subunit PapA
PMI_RS13425 down –1.001 < 0.001 phosphorelay signal transduction system
PMI_RS13430 down –1.190 < 0.001 TetR/AcrR family transcriptional regulator
PMI_RS14090 down –1.029 < 0.001 putative transport protein
PMI_RS14825 down –1.315 0.017 Mat/Ecp fimbriae adhesion
PMI_RS14830 down –1.430 0.012 Mat/Ecp fimbriae outer membrane usher protein
PMI_RS14835 down –1.349 0.037 Mat/Ecp fimbriae periplasmic chaperone
PMI_RS14840 down –2.151 0.048 Mat/Ecp fimbriae adhesion
PMI_RS15035 down –1.003 0.027 cation/acetate symporter
PMI_RS15880 down –1.250 < 0.001 glycerol uptake facilitator protein
PMI_RS17135 down –1.018 0.020 minor fimbrial subunit
PMI_RS18425 down – 1.060 0.023 putative oxidoreductase

OD600 value of PML and PMS_

Time (h) PML PMS
0 0.548 ± 0.005 0.547 ± 0.006
2 0.581 ± 0.008 0.591 ± 0.005
4 0.674 ± 0.010 0.726 ± 0.005
6 0.863 ± 0.026 0.955 ± 0.012
8 1.206 ± 0.018 1.411 ± 0.026
10 1.560 ± 0.022 1.636 ± 0.013
12 1.709 ± 0.019 1.806 ± 0.027
14 1.776 ± 0.016 1.872 ± 0.024
16 1.826 ± 0.021 1.938 ± 0.025
18 1.876 ± 0.018 1.983 ± 0.015
20 1.927 ± 0.018 1.955 ± 0.014
22 1.900 ± 0.019 1.957 ± 0.028
24 1.889 ± 0.018 1.916 ± 0.014
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Ciencias de la vida, Microbiología y virología
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